PHATE 1.0.10-foss-2021b

PHATE (Potential of Heat-diffusion for Affinity-based Trajectory Embedding) is a tool for visualizing high dimensional single-cell data with natural progressions or trajectories. PHATE uses a novel conceptual framework for learning and visualizing the manifold inherent to biological systems in which smooth transitions mark the progressions of cells from one state to another.

Accessing PHATE 1.0.10-foss-2021b

To load the module for PHATE 1.0.10-foss-2021b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load bear-apps/2021b
module load PHATE/1.0.10-foss-2021b

BEAR Apps Version

2021b

Architectures

EL8-cascadelakeEL8-haswellEL8-icelake

The listed architectures consist of two part: OS-CPU.

  • BlueBEAR: The OS used on BlueBEAR is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.
  • BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.

Extensions

  • Deprecated 1.2.14
  • graphtools 1.5.3
  • phate 1.0.10
  • PyGSP 0.5.1
  • s_gd2 1.8.1
  • scprep 1.2.2
  • tasklogger 1.2.0
  • wrapt 1.15.0

More Information

For more information visit the PHATE website.

Dependencies

This version of PHATE has a direct dependency on: foss/2021b matplotlib/3.4.3-foss-2021b Python/3.9.6-GCCcore-11.2.0 scikit-learn/1.0.1-foss-2021b SciPy-bundle/2021.10-foss-2021b

Required By

This version of PHATE is a direct dependent of: phateR/1.0.7-foss-2021b-R-4.2.0

Other Versions

These versions of PHATE are available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Version BEAR Apps Version
1.0.7-foss-2020a-Python-3.8.2 2020a

Last modified on 5th June 2023